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LINC02474 long intergenic non-protein coding RNA 2474 [ Homo sapiens (human) ]

Gene ID: 110806276, updated on 10-Oct-2023

Summary

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Official Symbol
LINC02474provided by HGNC
Official Full Name
long intergenic non-protein coding RNA 2474provided by HGNC
Primary source
HGNC:HGNC:53417
See related
AllianceGenome:HGNC:53417
Gene type
ncRNA
RefSeq status
VALIDATED
Organism
Homo sapiens
Lineage
Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; Catarrhini; Hominidae; Homo
Also known as
lncSLCC1
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Genomic context

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Location:
1q41
Exon count:
3
Annotation release Status Assembly Chr Location
RS_2023_10 current GRCh38.p14 (GCF_000001405.40) 1 NC_000001.11 (221966410..221984964)
RS_2023_10 current T2T-CHM13v2.0 (GCF_009914755.1) 1 NC_060925.1 (221206572..221225114)
105.20220307 previous assembly GRCh37.p13 (GCF_000001405.25) 1 NC_000001.10 (222139752..222158306)

Chromosome 1 - NC_000001.11Genomic Context describing neighboring genes Neighboring gene P300/CBP strongly-dependent group 1 enhancer GRCh37_chr1:222012693-222013892 Neighboring gene long intergenic non-protein coding RNA 1655 Neighboring gene uncharacterized LOC124904517 Neighboring gene RNA, U6 small nuclear 403, pseudogene Neighboring gene NANOG hESC enhancer GRCh37_chr1:222029846-222030731 Neighboring gene long intergenic non-protein coding RNA 2257 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 2573 Neighboring gene NANOG-H3K27ac hESC enhancer GRCh37_chr1:222138826-222139438 Neighboring gene OCT4-NANOG-H3K27ac hESC enhancer GRCh37_chr1:222144341-222144953 Neighboring gene NANOG-H3K27ac hESC enhancer GRCh37_chr1:222144954-222145565 Neighboring gene NANOG-H3K27ac hESC enhancer GRCh37_chr1:222145566-222146178 Neighboring gene OCT4-NANOG-H3K27ac hESC enhancer GRCh37_chr1:222146179-222146790 Neighboring gene 1q41 HERV-mediated proximal recombination region Neighboring gene OCT4-NANOG-H3K27ac hESC enhancer GRCh37_chr1:222146791-222147403 Neighboring gene OCT4-NANOG-H3K27ac hESC enhancer GRCh37_chr1:222151877-222152619 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 2574 Neighboring gene NANOG-H3K4me1 hESC enhancer GRCh37_chr1:222182340-222182872 Neighboring gene ReSE screen-validated silencer GRCh37_chr1:222222797-222223045 Neighboring gene long intergenic non-protein coding RNA 1705 Neighboring gene uncharacterized LOC124904518 Neighboring gene MPRA-validated peak711 silencer

Genomic regions, transcripts, and products

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Go to nucleotide: Graphics FASTA GenBank

Expression

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  • Project title: HPA RNA-seq normal tissues
  • Description: RNA-seq was performed of tissue samples from 95 human individuals representing 27 different tissues in order to determine tissue-specificity of all protein-coding genes
  • BioProject: PRJEB4337
  • Publication: PMID 24309898
  • Analysis date: Wed Apr 4 07:08:55 2018

Bibliography

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Related articles in PubMed

  1. Risk SNP-induced lncRNA-SLCC1 drives colorectal cancer through activating glycolysis signaling. Yan T, et al. Signal Transduct Target Ther, 2021 Feb 19. PMID 33602893, Free PMC Article
  2. Identification of differential expression lncRNAs in gastric cancer using transcriptome sequencing and bioinformatics analyses. Wang Y, et al. Mol Med Rep, 2018 Jun. PMID 29693709, Free PMC Article

GeneRIFs: Gene References Into Functions

Phenotypes

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Review eQTL and phenotype association data in this region using PheGenI

Variation

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See variants in ClinVar

See studies and variants in dbVar

See Variation Viewer (GRCh37.p13)

Genotypes

General gene information

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Other Names

  • RP11-400N13.2

NCBI Reference Sequences (RefSeq)

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RefSeqs maintained independently of Annotated Genomes

These reference sequences exist independently of genome builds. Explain

These reference sequences are curated independently of the genome annotation cycle, so their versions may not match the RefSeq versions in the current genome build. Identify version mismatches by comparing the version of the RefSeq in this section to the one reported in Genomic regions, transcripts, and products above.

RNA

  1. NR_149071.1 RNA Sequence

    Status: VALIDATED

    Source sequence(s)
    AC092765

RefSeqs of Annotated Genomes: GCF_000001405.40-RS_2023_10

The following sections contain reference sequences that belong to a specific genome build. Explain

Reference GRCh38.p14 Primary Assembly

Genomic

  1. NC_000001.11 Reference GRCh38.p14 Primary Assembly

    Range
    221966410..221984964
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

Alternate T2T-CHM13v2.0

Genomic

  1. NC_060925.1 Alternate T2T-CHM13v2.0

    Range
    221206572..221225114
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)
Nucleotide Protein
Heading Accession and Version

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